Polygenic Score (PGS) ID: PGS019480

Predicted Trait
Reported Trait Calculus of kidney
Mapped Trait(s) kidney volume (OBA_2050015)
Released in PGS Catalog: July 29, 2026
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Score Details

Score Construction
PGS Name TPMI_594.1_LDpred2
Development Method
Name LDpred2
Parameters NR
Variants
Original Genome Build GRCh38
Number of Variants 370,680
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000835
Citation (link to publication) Chen HH et al. Nature (2025)
Ancestry Distribution
Source of Variant
Associations (GWAS)
East Asian: 100%
326,206 individuals (100%)
Score Development/Training
East Asian: 100%
74,441 individuals (100%)
PGS Evaluation
East Asian: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
—
[
  • 5,889 cases
  • , 320,317 controls
]
,
43.84 % Male samples
 East Asian
(Han Chinese)		 TPMI
Score Development/Training
Study Identifiers Sample Numbers Sample Ancestry Cohort(s) Phenotype Definitions & Methods Age of Study Participants Participant Follow-up Time Additional Ancestry Description Additional Sample/Cohort Information
—
[
  • 2,104 cases
  • , 72,337 controls
]
,
45.07 % Male samples
 East Asian
(Han Chinese)		 TPMI 592.1,N20.1 — — — —

Performance Metrics

Disclaimer: The performance metrics are displayed as reported by the source studies. It is important to note that metrics are not necessarily comparable with each other. For example, metrics depend on the sample characteristics (described by the PGS Catalog Sample Set [PSS] ID), phenotyping, and statistical modelling. Please refer to the source publication for additional guidance on performance.

PGS Performance
Metric ID (PPM) 		PGS Sample Set ID
(PSS) 		Performance Source Trait PGS Effect Sizes
(per SD change) 		Classification Metrics Other Metrics Covariates Included in the Model PGS Performance:
Other Relevant Information
PPM037662 PSS013375|
East Asian Ancestry|
18,882 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Calculus of kidney — AUROC: 0.67594 R²: 0.07087 sex, age, array, PCs 1-10 —

Evaluated Samples

PGS Sample Set ID
(PSS) 		Phenotype Definitions and Methods Participant Follow-up Time Sample Numbers Age of Study Participants Sample Ancestry Additional Ancestry Description Cohort(s) Additional Sample/Cohort Information
PSS013375 592.0,N20.0, N20.2 —
[
  • 805 cases
  • , 18,077 controls
]
,
45.34 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —